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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gttgcaaaatttgcaggcattagctctgtcaattttgtgttttagttaatcctctaagatttgcttgttggtcctcttctgattagcatctctaatgcagTTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCTTCTCTGCTGAAACCTGGGGGTTATTTTCTTGGTATTACTCCTGACTCAT

Basic information

species Glycine max
transcript GLYMA06G13240.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA06G13240.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G52210.2 (Arabidopsis thaliana), 3'ss of exon 4
gttgcaaaatttgcaggcattagctctgtcaattttgtgttttagttaatcctctaagatttgcttgttggtcctcttctgat-tagcatctc--taatgcagTTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCTTCTCTGCTGAAACCTGGGGGTTATTTTCTTGGTATTACTCCTGACTCAT
                        | ||   |||||||  |||  ||  |||   ||   | || |        | |  || | ||  ||||   | ||| |||| || ||||| ||||| ||||  ||  | | ||| ||   ||||||  | | | | |||||||| |||||||||||| | ||||| ||||||||||| |
-----------------------gtttga-gattttgtcgtttgttttctccgaaaaatgtagcatagcaaggatgtgatggtctaaaatcttctttatgtagTTATGCTTTGAAACTGAGGAGAGTGCGAGAAGACTCCTAACTAATGTAGCATGTTTACTGAAACCAGGGGGTTATTTTTTCGGTATCACTCCTGACTCGT
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|8669741|gb|BE190848.1|BE190848
EST:     AGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAG                         TTGTGTTTTGATACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCT
genomic: AGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAGgtctgacatt ... tctaatgcagTTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCT
EST: gi|298188464|gb|HO035157.1|HO035157
EST:     AGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAG                         TTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCT
genomic: AGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAGgtctgacatt ... tctaatgcagTTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCT
EST: gi|151396980|gb|EV266853.1|EV266853
EST:     AGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAG                         TTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCT
genomic: AGGAGAAGACCAACATGACTGATGTTGTCTGCTGTTTGCAGCATTTGCAGgtctgacatt ... tctaatgcagTTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatcctctaagatttgcttgttggtcctcttctgattagcatctctaatgcagTTGTGTTTTGAGACTGAAGAGAAAGCACGGAAACTGCTGCATAATGTGTCTTCTCTGCTGAAACCTGGGGGTTATTTTCTTGGTATTACTCCTGACTCAT
                                            ctctaat  putative branch site (score: 3)
                                         catctct  CT-rich tract
         taagattt  TA-rich tract